Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 139 of 316
Found at i:44438098 original size:43 final size:39
Alignment explanation
Indices: 44438051--44438222 Score: 124
Period size: 44 Copynumber: 4.3 Consensus size: 39
44438041 TTCTAATATG
*
44438051 TATATATTATATAAATGTTTAAATATTATATTATATATTCTTC
1 TATATATTATAT--AT-TTTAAATATTATATTATATATT-TTA
* * *
44438094 TATATA-TATATGTTTTCAATATTATATT-T-T-TTATA
1 TATATATTATATATTTTAAATATTATATTATATATTTTA
*
44438129 TAT-TATTATATATTTT-AATATTATTAGTTATATATTTTT
1 TATATATTATATATTTTAAATATTA-TA-TTATATATTTTA
*
44438168 TATACTATTATATGTATATTTATAATATTATATTGTATATTTCTA
1 TATA-TATTATA--TAT-TTTA-AATATTATATTATATATTT-TA
44438213 -ATACTATTAT
1 TATA-TATTAT
44438223 TTATATATGT
Statistics
Matches: 106, Mismatches: 9, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
34 9 0.08
35 15 0.14
36 4 0.04
37 2 0.02
38 2 0.02
39 20 0.19
40 1 0.01
41 7 0.07
42 5 0.05
43 9 0.08
44 22 0.21
45 3 0.03
46 7 0.07
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (39 bp):
TATATATTATATATTTTAAATATTATATTATATATTTTA
Found at i:44438103 original size:16 final size:15
Alignment explanation
Indices: 44438077--44438135 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 15
44438067 GTTTAAATAT
44438077 TATATTATATATTCTTC
1 TATA-TATATATT-TTC
44438094 TATATATATATGTTTTC
1 TATATATATA--TTTTC
* *
44438111 AATAT-TATATTTTT
1 TATATATATATTTTC
44438125 TATATAT-TATT
1 TATATATATATT
44438136 ATATATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 12 0.33
15 1 0.03
16 10 0.28
17 11 0.31
18 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATATATATATTTTC
Found at i:44438129 original size:14 final size:16
Alignment explanation
Indices: 44438077--44438152 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 16
44438067 GTTTAAATAT
44438077 TATATTATATATTCTTC
1 TATATTATATATT-TTC
*
44438094 TATATATATATGTTTTC
1 TATAT-TATATATTTTC
* * *
44438111 AATATTATATTTTTTA
1 TATATTATATATTTTC
44438127 TATATTATTATATATTT-
1 TATATTA-TATAT-TTTC
44438144 TAATATTAT
1 T-ATATTAT
44438153 TAGTTATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
16 15 0.31
17 18 0.37
18 16 0.33
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (16 bp):
TATATTATATATTTTC
Found at i:44438139 original size:39 final size:38
Alignment explanation
Indices: 44438046--44438141 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
44438036 TTTATTTCTA
* *
44438046 ATATGTATA-TATTATATAAATGTTTAAATATTATATT
1 ATATATATATTATTATATATATGTTTAAATATTATATT
* * *
44438083 ATATAT-TCTTCTATATATATATGTTTTCAATATTATATT
1 ATATATATATTAT-TATATATATG-TTTAAATATTATATT
* *
44438122 TTTTATATATTATTATATAT
1 ATATATATATTATTATATAT
44438142 TTTAATATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
36 1 0.02
37 7 0.15
38 9 0.20
39 25 0.54
40 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (38 bp):
ATATATATATTATTATATATATGTTTAAATATTATATT
Found at i:44438142 original size:21 final size:22
Alignment explanation
Indices: 44438113--44438230 Score: 111
Period size: 23 Copynumber: 5.5 Consensus size: 22
44438103 ATGTTTTCAA
44438113 TATTATAT-TTTTT-ATA-TAT
1 TATTATATATTTTTAATACTAT
*
44438132 TATTATATA-TTTTAATATTAT
1 TATTATATATTTTTAATACTAT
*
44438153 TAGTTATATATTTTTTATACTAT
1 TA-TTATATATTTTTAATACTAT
* * *
44438176 TATATGTATATTTATAATATTA-
1 TAT-TATATATTTTTAATACTAT
* *
44438198 TATTGTATATTTCTAATACTAT
1 TATTATATATTTTTAATACTAT
44438220 TATTTATATAT
1 TA-TTATATAT
44438231 GTATATATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
19 12 0.15
20 3 0.04
21 21 0.26
22 13 0.16
23 33 0.40
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATATATTTTTAATACTAT
Found at i:44438149 original size:8 final size:9
Alignment explanation
Indices: 44438115--44438171 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
44438105 GTTTTCAATA
*
44438115 TTATATTTT
1 TTATATATT
44438124 TTATATATT
1 TTATATATT
44438133 ATTATATATT
1 -TTATATATT
44438143 TTAATATTATT
1 TT-ATA-TATT
44438154 AGTTATATATT
1 --TTATATATT
*
44438165 TTTTATA
1 TTATATA
44438172 CTATTATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 16 0.39
10 12 0.29
11 8 0.20
12 3 0.07
13 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATATATT
Found at i:44438149 original size:34 final size:34
Alignment explanation
Indices: 44438078--44438152 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
44438068 TTTAAATATT
* *
44438078 ATATTATATATTCTTCTATATATATATGTTTTCA
1 ATATTATATATTCTTATATATATATATATTTTCA
*
44438112 ATATTATAT-TTTTTATATATTATTATATATTTT-A
1 ATATTATATATTCTTATATA-TA-TATATATTTTCA
44438146 ATATTAT
1 ATATTAT
44438153 TAGTTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 8 0.22
34 19 0.53
35 9 0.25
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (34 bp):
ATATTATATATTCTTATATATATATATATTTTCA
Found at i:44438207 original size:44 final size:45
Alignment explanation
Indices: 44438116--44438240 Score: 150
Period size: 44 Copynumber: 2.8 Consensus size: 45
44438106 TTTTCAATAT
44438116 TATATTTTTTATA-TATTATTATATATTT-TAATATTATTAGTTA
1 TATATTTTTTATACTATTATTATATATTTATAATATTATTAGTTA
* *
44438159 TATATTTTTTATACTATTATATGTATATTTATAATATTA-TA-TTG
1 TATATTTTTTATACTATTAT-TATATATTTATAATATTATTAGTTA
* * *
44438203 TATATTTCTAATACTATTATTTATATATGTATATATAT
1 TATATTTTTTATACTATTA-TTATATATTTATA-ATAT
44438241 GTGTGTATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 13 0.18
44 35 0.49
45 15 0.21
46 8 0.11
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (45 bp):
TATATTTTTTATACTATTATTATATATTTATAATATTATTAGTTA
Found at i:44443682 original size:407 final size:405
Alignment explanation
Indices: 44442807--44444024 Score: 1623
Period size: 407 Copynumber: 3.0 Consensus size: 405
44442797 TGTACACTTT
* * *
44442807 ATTAAAGTTTTTCTTGAACTCGAAAATGTATTACTTGTACAAGGATTGAAAACTAACGTAATAAG
1 ATTAAAG-TTTTCTTGACCTTGAAAATGTATTACTTGTACAGGGATTGAAAACTAACGTAATAAG
* * * *
44442872 CATAAGTTAAGC-ATGTGGCCAAAGACTTAATAT-ATGATTTAACAAAAATAGTTGTGATGTAAT
65 CATAAGTCAA-CTATGTGACCAAAGGCTTAATATGAT-ATTTAACAAAATTAG-TGTGATGTAAT
* * *
44442935 TAATGAAAAAAATTGTTATAATAAGAGGAGCAAAA-ACTTTTGACAATTACTACAAAGTTTTTAA
127 TAATGAAAAAAAATGTTATAATAAGAGGAGCAAAATA-TTTTGAAAATTGCTACAAAGTTTTTAA
* * ** ** *
44442999 TGAAGTTATTTGCAATAAAACTACTATGCAAGATCTAGATTTGTGACATCGAAAGTTTGGTGGTG
191 TGAAGTTATTTGCAATAAAGCTACTATACAAGATCTAGAGGTGTGACATC-AAAAATTGGTGATG
* *
44443064 TGAATTATTGAAACTT------ACTTGATCAATATGATGCAATTAGAAGACTTTCAAAACTCAAA
255 TGAATTATCGAAACTTACAAAGACTTGATCAATACGATGCAATTAGAAGACTTTCAAAACTCAAA
* * *
44443123 AGTGTTGTGACCAAACTTTGTAGAGATTGTGTTTTGGGGAGACAACACATGGTGACCAATCTAAT
320 AGTGTTGTGACCAAACCTTGTAGAGATTGTGTTTTGGGGAAACAACACATGGTGATCAATCTAAT
44443188 TTTGCCACAAGTAGTGACACA
385 TTTGCCACAAGTAGTGACACA
* * *
44443209 ATTAAATGTTTTCTTGACCTTGAAAATATATTACTTGTATAGGGATTGAAAACTAACTTAATAAG
1 ATTAAA-GTTTTCTTGACCTTGAAAATGTATTACTTGTACAGGGATTGAAAACTAACGTAATAAG
* *
44443274 CATAAGTCAACTATATGACCAAAGGCTTAATATGATATTTAACAAAATTAGTGGAGATGTAATTA
65 CATAAGTCAACTATGTGACCAAAGGCTTAATATGATATTTAACAAAATTAGT-GTGATGTAATTA
* * * *
44443339 ATCAAAAGAACTGTTATAATAAGAGGAGCAAAATTTTTTGAAAATTGCTACAAAGTTTTTAATGA
129 ATGAAAAAAAATGTTATAATAAGAGGAGCAAAATATTTTGAAAATTGCTACAAAGTTTTTAATGA
* *
44443404 AGTTATTTTCAATAAAGCTACTATACAAGATCTAAAGGTGTGACATCAACAAATTGGTGATGTGA
194 AGTTATTTGCAATAAAGCTACTATACAAGATCTAGAGGTGTGACATCAA-AAATTGGTGATGTGA
* * **
44443469 ATTATCGAAACTTACAAAGACTTCATCAATA-AATATAATTAGAAGACTTTCAAAACTCAAAAGT
258 ATTATCGAAACTTACAAAGACTTGATCAATACGATGCAATTAGAAGACTTTCAAAACTCAAAAGT
* * * *
44443533 ATTGTGACCAAACCTTGTGGAGATTGTGTTTTTGGGAAACAACACATGGTGATCTATCTAATTTT
323 GTTGTGACCAAACCTTGTAGAGATTGTGTTTTGGGGAAACAACACATGGTGATCAATCTAATTTT
* *
44443598 GCCACTAGTTGTGACACA
388 GCCACAAGTAGTGACACA
* * *
44443616 ATTAAAGATTTTCTTTACCTTGATAATGTATTACTTGTACAGGGTTTGAAAACTAACGTAATAAG
1 ATTAAAG-TTTTCTTGACCTTGAAAATGTATTACTTGTACAGGGATTGAAAACTAACGTAATAAG
* * *
44443681 CATAAGTCAACTATGTGACCAAAGGCTTAATATGAGATTTAACAAAAATAACTGTGATGTAATTA
65 CATAAGTCAACTATGTGACCAAAGGCTTAATATGATATTTAAC-AAAATTAGTGTGATGTAATTA
** *
44443746 ATGAAAAAAAAT-TTATAATAAGAGGAGCAAAATAAATTGAAAATTGTTACAAAGTTTTTAATGA
129 ATGAAAAAAAATGTTATAATAAGAGGAGCAAAATATTTTGAAAATTGCTACAAAGTTTTTAATGA
* * * * * *
44443810 AGTTATTTGCAATAAAGTTACTATAAAAGATCTAGAGGTGTTACCTCAAAAGATTGGCGATGTGG
194 AGTTATTTGCAATAAAGCTACTATACAAGATCTAGAGGTGTGACATCAAAA-ATTGGTGATGTGA
* ** * * *
44443875 ACTATCGATTCTTACAAAGACTTGATCAATACGATGCAATTAGAAGACTTTCGAAACCCGAAAGT
258 ATTATCGAAACTTACAAAGACTTGATCAATACGATGCAATTAGAAGACTTTCAAAACTCAAAAGT
* * * *
44443940 GTTGTGACTAGACCTTGTAGAGATTGTGTTTTGGGGAAACAACACATGTTG-TCCCATCTAATTT
323 GTTGTGACCAAACCTTGTAGAGATTGTGTTTTGGGGAAACAACACATGGTGAT-CAATCTAATTT
44444004 TGCCACAAGTAGTGACACA
387 TGCCACAAGTAGTGACACA
44444023 AT
1 AT
44444025 GCCCATTGGA
Statistics
Matches: 713, Mismatches: 86, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
401 4 0.01
402 232 0.33
403 3 0.00
405 2 0.00
406 131 0.18
407 323 0.45
408 18 0.03
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (405 bp):
ATTAAAGTTTTCTTGACCTTGAAAATGTATTACTTGTACAGGGATTGAAAACTAACGTAATAAGC
ATAAGTCAACTATGTGACCAAAGGCTTAATATGATATTTAACAAAATTAGTGTGATGTAATTAAT
GAAAAAAAATGTTATAATAAGAGGAGCAAAATATTTTGAAAATTGCTACAAAGTTTTTAATGAAG
TTATTTGCAATAAAGCTACTATACAAGATCTAGAGGTGTGACATCAAAAATTGGTGATGTGAATT
ATCGAAACTTACAAAGACTTGATCAATACGATGCAATTAGAAGACTTTCAAAACTCAAAAGTGTT
GTGACCAAACCTTGTAGAGATTGTGTTTTGGGGAAACAACACATGGTGATCAATCTAATTTTGCC
ACAAGTAGTGACACA
Found at i:44447225 original size:19 final size:18
Alignment explanation
Indices: 44447189--44447229 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44447179 GAATGCTTAA
*
44447189 AAAATGTAAAAAAAATAT
1 AAAATATAAAAAAAATAT
*
44447207 AAAATATAAAATAATATAT
1 AAAATATAAAA-AAAATAT
44447226 AAAA
1 AAAA
44447230 ATTTAGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATATAAAAAAAATAT
Found at i:44449523 original size:69 final size:69
Alignment explanation
Indices: 44449397--44449596 Score: 165
Period size: 68 Copynumber: 2.9 Consensus size: 69
44449387 ACAGAGGTTT
* * * ** * * *
44449397 AAGGTGTAAGACCCTAGCTTGGCTATGGCAACCAATAAAGT-CGACTGAGATAGTAAACATGTGG
1 AAGGTGTAAGACCATAGCTTAGCTATGACAACCAATGGAGTCCGCCAGAGACAGTAAACATG-GG
*
44449461 ATTAC
65 ACTAC
* * *
44449466 AAGGTGTAAGACCATAGCTTAGCTATGAAAACCAATGGAGTCCGCCAG-GACATTAAACATGGGG
1 AAGGTGTAAGACCATAGCTTAGCTATGACAACCAATGGAGTCCGCCAGAGACAGTAAACATGGGA
*
44449530 CTAT
66 CTAC
*** * * * * *
44449534 GTTGTGCAAGACCATAGCTTAGCTATGACAA-CATATGGAGCCCG-CTGGGATAGTAAACATGGG
1 AAGGTGTAAGACCATAGCTTAGCTATGACAACCA-ATGGAGTCCGCCAGAGACAGTAAACATGGG
44449597 GTAGTCCACC
Statistics
Matches: 106, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
67 4 0.04
68 52 0.49
69 46 0.43
70 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (69 bp):
AAGGTGTAAGACCATAGCTTAGCTATGACAACCAATGGAGTCCGCCAGAGACAGTAAACATGGGA
CTAC
Found at i:44452035 original size:45 final size:45
Alignment explanation
Indices: 44451985--44452074 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
44451975 GATGTGTTAA
44451985 TATGTGTTTATATTTCAATTTTGCATTTTGTATTTCTATAATTTG
1 TATGTGTTTATATTTCAATTTTGCATTTTGTATTTCTATAATTTG
44452030 TATGTGTTTATATTTCAATTTTGCATTTTGTATTTCTATAATTTG
1 TATGTGTTTATATTTCAATTTTGCATTTTGTATTTCTATAATTTG
44452075 AACCTAATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (45 bp):
TATGTGTTTATATTTCAATTTTGCATTTTGTATTTCTATAATTTG
Found at i:44452896 original size:24 final size:24
Alignment explanation
Indices: 44452869--44452921 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
44452859 ATGAATAAAT
44452869 ATATTAATTAGTTAATTGATGTTG
1 ATATTAATTAGTTAATTGATGTTG
44452893 ATATTAATTAGTTAATTGATGTTG
1 ATATTAATTAGTTAATTGATGTTG
*
44452917 TTATT
1 ATATT
44452922 CAAGTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (24 bp):
ATATTAATTAGTTAATTGATGTTG
Found at i:44453859 original size:22 final size:22
Alignment explanation
Indices: 44453833--44453878 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
44453823 ATATTGGTTG
44453833 TATGAACATTTGGTATGGAGAT
1 TATGAACATTTGGTATGGAGAT
*
44453855 TATGAACATTTGGTGTGGAGAT
1 TATGAACATTTGGTATGGAGAT
44453877 TA
1 TA
44453879 CTCATTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (22 bp):
TATGAACATTTGGTATGGAGAT
Found at i:44454190 original size:20 final size:20
Alignment explanation
Indices: 44454151--44454190 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44454141 CCCCTGCAAC
* *
44454151 TTTGAAAATTTTCTATGTTT
1 TTTGAAAATTTTATAAGTTT
44454171 TTTGAAAATTTTATAAGTTT
1 TTTGAAAATTTTATAAGTTT
44454191 CCTATTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTGAAAATTTTATAAGTTT
Found at i:44454984 original size:46 final size:45
Alignment explanation
Indices: 44454899--44454988 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
44454889 AGTTACTTTT
* **
44454899 TTAAGTATTTAATGTGTTCTAATTAGATTCAGTAATTAATATGTA
1 TTAAGTAATTAATGTGTTCTAATTAGATTCACCAATTAATATGTA
*
44454944 TTAAGTTAATTAATGTGTTCTAATTAG-TTCAACCATTTAATATGT
1 TTAAG-TAATTAATGTGTTCTAATTAGATTC-ACCAATTAATATGT
44454989 CCTATGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 8 0.21
46 31 0.79
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (45 bp):
TTAAGTAATTAATGTGTTCTAATTAGATTCACCAATTAATATGTA
Found at i:44458365 original size:24 final size:24
Alignment explanation
Indices: 44458336--44458389 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
44458326 GGAAAAAGAG
44458336 AAAGAACAAGAGAAAAAGAATGAA
1 AAAGAACAAGAGAAAAAGAATGAA
*
44458360 AAAGAACAAGAGAGAAAGAATGAA
1 AAAGAACAAGAGAAAAAGAATGAA
44458384 AAAGAA
1 AAAGAA
44458390 AAAAAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (24 bp):
AAAGAACAAGAGAAAAAGAATGAA
Found at i:44458391 original size:30 final size:26
Alignment explanation
Indices: 44458320--44458405 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
44458310 AACAATCTGT
* *
44458320 AGAAAAGGAAAAAGAGAAAGAACAAG
1 AGAAAAAGAAAAAGAAAAAGAACAAG
*
44458346 AGAAAAAG--AATGAAAAAGAACAAGAG
1 AGAAAAAGAAAAAGAAAAAGAAC-A-AG
*
44458372 AGAAAGAATGAAAAAGAAAAA-AAAAAG
1 AGAAA-AA-GAAAAAGAAAAAGAACAAG
44458399 -GAAAAAG
1 AGAAAAAG
44458406 TGAGAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
24 12 0.24
25 3 0.06
26 18 0.37
27 4 0.08
28 2 0.04
29 2 0.04
30 8 0.16
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (26 bp):
AGAAAAAGAAAAAGAAAAAGAACAAG
Found at i:44461859 original size:48 final size:48
Alignment explanation
Indices: 44461807--44461984 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
44461797 ATGTGTAACC
* * *
44461807 GTGTAAGACCATATCTGGGACATGGCATTGGCATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCA
* *
44461855 GTGTAAGACCATGTCTGGGACATGGCATCGACATCGTTATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCA
* * *
44461903 GTGTAAGACCATGTCTGAGACATGGCATCAGCATCGTTATGTAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCA
* * *
44461951 GTGTAAGACCATGTTTGGGACTTGGCATCTGCAT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT
44461985 GAGGCATTGT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCA
Found at i:44467807 original size:46 final size:45
Alignment explanation
Indices: 44467741--44467831 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 45
44467731 TTACTTTAGT
44467741 TTAAGTAATTAATGTGTTCTAATTAGATTCAGCAAT-TAATATGTC
1 TTAAGTAATTAATGTGTTCTAATTAG-TTCAGCAATCTAATATGTC
*
44467786 TTAAGTTAATTAATGTGTTCTAATTAGTTCAGCCATCTAATATGTC
1 TTAAG-TAATTAATGTGTTCTAATTAGTTCAGCAATCTAATATGTC
44467832 CTAACTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
45 13 0.30
46 30 0.70
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (45 bp):
TTAAGTAATTAATGTGTTCTAATTAGTTCAGCAATCTAATATGTC
Found at i:44472127 original size:16 final size:16
Alignment explanation
Indices: 44472106--44472136 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44472096 TTAAATGATA
44472106 TTAGTACATATATATT
1 TTAGTACATATATATT
44472122 TTAGTACATATATAT
1 TTAGTACATATATAT
44472137 GTATACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTAGTACATATATATT
Found at i:44472363 original size:22 final size:22
Alignment explanation
Indices: 44472315--44472371 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
44472305 TATATTTTCT
* *
44472315 TTTATATATTATGTATATACATT
1 TTTA-ATATTATATATATACATG
* *
44472338 TTTAATATTATATATGTATATG
1 TTTAATATTATATATATACATG
*
44472360 TTT-ATACTATAT
1 TTTAATATTATAT
44472372 TAGTTAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 8 0.28
22 17 0.59
23 4 0.14
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAATATTATATATATACATG
Found at i:44472626 original size:22 final size:21
Alignment explanation
Indices: 44472587--44472661 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 21
44472577 ATTTCTAATG
*
44472587 TATATGTATATATCGTATATGTTT
1 TATATATAT-TAT-GTATAT-TTT
44472611 TATATATATTATGTATATATTT
1 TATATATATTATGTATAT-TTT
44472633 TCA-ATATTATTACT-TATATTTT
1 T-ATATA-TATTA-TGTATATTTT
44472655 TATATAT
1 TATATAT
44472662 TATTCCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.04
22 20 0.44
23 14 0.31
24 9 0.20
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATATATTATGTATATTTT
Found at i:44472639 original size:24 final size:24
Alignment explanation
Indices: 44472612--44472757 Score: 70
Period size: 24 Copynumber: 5.8 Consensus size: 24
44472602 TATATGTTTT
44472612 ATATATATTATGTATATATTTTCA
1 ATATATATTATGTATATATTTTCA
44472636 ATAT-TATTACT-TATAT-TTTT--
1 ATATATATTA-TGTATATATTTTCA
* *
44472656 ATATATTATTCCATGTACATA-TTTCC
1 ATATA-TATT--ATGTATATATTTTCA
*
44472682 ATATCATCTTATGTATATATTCTTAAACA
1 ATAT-ATATTATGTATATATT-TT---CA
* * * *
44472711 TTATTATATGTATATGTATATTTTTA
1 ATA-TATAT-TATGTATATATTTTCA
*
44472737 ATACCATATTATGTATATATT
1 ATA-TATATTATGTATATATT
44472758 ATTATTACAT
Statistics
Matches: 91, Mismatches: 14, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
20 4 0.04
22 8 0.09
23 11 0.12
24 21 0.23
25 11 0.12
26 16 0.18
27 1 0.01
29 8 0.09
30 11 0.12
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTCA
Found at i:44472641 original size:20 final size:21
Alignment explanation
Indices: 44472614--44472665 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44472604 TATGTTTTAT
44472614 ATATATTATGTA-TATATTTTC
1 ATATATTAT-TACTATATTTTC
*
44472635 A-ATATTATTACTTATATTTTT
1 ATATATTATTAC-TATATTTTC
44472656 ATATATTATT
1 ATATATTATT
44472666 CCATGTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 10 0.37
22 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTATTACTATATTTTC
Found at i:44477405 original size:46 final size:45
Alignment explanation
Indices: 44477355--44477527 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
44477345 TGTTTGGGCA
44477355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
44477401 TCCGAACTCGTTGAGCTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
44477448 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
44477494 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44477528 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 63 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:44477514 original size:93 final size:93
Alignment explanation
Indices: 44477351--44477522 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44477341 AGGATGTTTG
* * *
44477351 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
44477416 CTGAGTCCGAGTTCGAGAGATGTAACTA
66 CTGAGTCCGAGTTCGAGAGATGTAACTA
* *
44477444 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
44477509 TTGAGTCCGAGTTC
66 CTGAGTCCGAGTTC
44477523 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
CTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:44480156 original size:161 final size:162
Alignment explanation
Indices: 44479985--44480383 Score: 572
Period size: 176 Copynumber: 2.4 Consensus size: 162
44479975 TTCTATTTTT
* * *
44479985 AAAAATCAACTCATATTGCGAGGGGTAAGTTGAGCCTCAGGTCACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
* *
44480050 C-ATGTTTCAAAAATCAACTCATATTGCTAGAGGCGAGTTGAGCCTCAGGTCACATGCTGAGGTA
66 CTATGTTTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTA
44480114 TTTTCAAATTTCTATTTTTCAATTTATGTTTC
131 TTTTCAAATTTCTATTTTTCAATTTATGTTTC
44480146 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTC--A-
*
44480211 TTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
63 ----A---TTC----TATGTTTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGT
44480276 CACACGCTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTC
117 CACACGCTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTC
* *
44480322 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--GCACGCTGA-GTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
44480384 TCTGCTTTTC
Statistics
Matches: 215, Mismatches: 8, Indels: 28
0.86 0.03 0.11
Matches are distributed among these distances:
161 58 0.27
163 3 0.01
166 1 0.00
168 1 0.00
171 4 0.02
173 8 0.04
174 8 0.04
176 132 0.61
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
CTATGTTTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTA
TTTTCAAATTTCTATTTTTCAATTTATGTTTC
Found at i:44480190 original size:88 final size:88
Alignment explanation
Indices: 44480041--44480398 Score: 616
Period size: 88 Copynumber: 4.1 Consensus size: 88
44480031 CGTTGAGGTA
* * * *
44480041 TTTTCAATTCATGTTTCAAAAATCAACTCATATTGCTAGAGGCGAGTTGAGCCTCAGGTCACATG
1 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
44480106 CTGAGGTATTTTCAAATTTCTAT
66 CTGAGGTATTTTCAAATTTCTAT
44480129 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
1 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
44480194 CTGAGGTATTTTCAAATTTCTAT
66 CTGAGGTATTTTCAAATTTCTAT
44480217 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
1 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
44480282 CTGAGGTATTTTCAAATTTCTAT
66 CTGAGGTATTTTCAAATTTCTAT
* *
44480305 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--GCACG
1 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
**
44480368 CTGA-GTATTTTC-AATTTCTGC
66 CTGAGGTATTTTCAAATTTCTAT
44480389 TTTTCAATTT
1 TTTTCAATTT
44480399 CTATTTTTCA
Statistics
Matches: 262, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
84 17 0.06
85 8 0.03
86 8 0.03
88 229 0.87
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
CTGAGGTATTTTCAAATTTCTAT
Found at i:44480335 original size:176 final size:176
Alignment explanation
Indices: 44480041--44480653 Score: 663
Period size: 176 Copynumber: 3.4 Consensus size: 176
44480031 CGTTGAGGTA
* * *
44480041 TTTTCAATTCATGTTTCAAAAATCAACTCATATTGCTAGAGGCGAGTTGAGCCTCAGGTCACATG
1 TTTTCAATTCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
44480106 CTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGG
66 CTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGG
44480171 TGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAAATTTCTAT
131 TGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAAATTTCTAT
*
44480217 TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
1 TTTTCAATTCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
*
44480282 CTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCAAGAGG
66 CTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGG
*
44480347 TGAGTTGAGCCTCAGG--GCACGCTGA-GTATTTTCAATTTCTGCTTTTCAATTTCTAT
131 TGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTC-A------------AATTTCTAT
44480403 TTTTCAAATTCA-GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
1 TTTTC-AATTCATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
* *
44480465 ACGCTGAGGTATTTTC-AATTTCTATTTTTTTTTCTTTTCAATTTATATTTTTCAAAAACCAACT
63 ACGCTGAGGTATTTTCAAATTTCTA--------T-TTTTCAA-TT-TATGTTTCAAAAATCAACT
* * * * * **
44480529 CATATTGCGAGAAGTGAGTTGAGCAT-TGGCTCACATGCTGAGCTATTTTC-AATTTCTGC
117 CATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTATTTTCAAATTTCTAT
* * * * * *
44480588 TTTT-AATGTCTATTTTTTAAAAGAATTAACTCATATTACGATAAGTGAGTTGAG-CTCAGGATC
1 TTTTCAAT-TC-A-TGTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TC
44480651 ACA
61 ACA
44480654 TGCCGAGTAA
Statistics
Matches: 374, Mismatches: 24, Indels: 66
0.81 0.05 0.14
Matches are distributed among these distances:
173 8 0.02
174 9 0.02
176 141 0.38
183 3 0.01
184 2 0.01
185 29 0.08
186 64 0.17
187 8 0.02
188 44 0.12
193 1 0.00
194 7 0.02
195 4 0.01
196 40 0.11
198 7 0.02
199 7 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (176 bp):
TTTTCAATTCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
CTGAGGTATTTTCAAATTTCTATTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAAATTTCTAT
Found at i:44480406 original size:14 final size:14
Alignment explanation
Indices: 44480375--44480409 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
44480365 ACGCTGAGTA
*
44480375 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
*
44480389 TTTTCAATTTCTAT
1 TTTTCAATTTCTAC
44480403 TTTTCAA
1 TTTTCAA
44480410 ATTCAGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:44480468 original size:100 final size:98
Alignment explanation
Indices: 44480296--44480604 Score: 364
Period size: 100 Copynumber: 3.1 Consensus size: 98
44480286 GGTATTTTCA
*
44480296 AATTTCTATTTTTC-AATTTATGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 AATTTCTATTTTTCAAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
44480360 AGGGCACGCTGAGTATTTTCAATTTCTGCTTTT
66 AGGACACGCTGAGTATTTTCAATTTCTGCTTTT
*
44480393 CAATTTCTATTTTTCAAATTCA-GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AATTTCTATTTTTCAAATTTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
44480457 CTCAGGACACGCTGAGGTATTTTCAATTTCT-ATTTT
63 CTCAGGACACGCTGA-GTATTTTCAATTTCTGCTTTT
* * * * *
44480493 --TTT-T-TCTTTTCAATTTATATTTTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCA
1 AATTTCTAT-TTTTCAAATT-TATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
44480554 T-TGGCTCACATGCTGAGCTATTTTCAATTTCTGCTTTT
64 TCAGG---ACACGCTGAG-TATTTTCAATTTCTGCTTTT
*
44480592 AATGTCTATTTTT
1 AATTTCTATTTTT
44480605 TAAAAGAATT
Statistics
Matches: 181, Mismatches: 14, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
95 3 0.02
96 44 0.24
97 5 0.03
98 45 0.25
99 9 0.05
100 52 0.29
101 17 0.09
102 5 0.03
103 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (98 bp):
AATTTCTATTTTTCAAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGTATTTTCAATTTCTGCTTTT
Found at i:44481343 original size:153 final size:153
Alignment explanation
Indices: 44481063--44481373 Score: 595
Period size: 153 Copynumber: 2.0 Consensus size: 153
44481053 CCAAAATTTA
44481063 AACCCCATTTTACAAAACCCACTTTAGACCCAACATGCATTAAACCCAACTAACAATATAAACCC
1 AACCCCATTTTACAAAACCCACTTTAGACCCAACATGCATTAAACCCAACTAACAATATAAACCC
* *
44481128 CTAAACCTATTTACAACGTAAACCCACTAACCCATCAAAAAACCCAAAAACTCAATAACCCAATT
66 CTAAACCTATTTACAACCTAAACCCACTAACCCATCAAAAAACCCAAAAACCCAATAACCCAATT
44481193 ACACCCTAACCCTAATCAGCCCT
131 ACACCCTAACCCTAATCAGCCCT
44481216 AACCCCATTTTACAAAACCCACTTTAGACCCAACATGCATTAAACCCAACTAACAATATAAACCC
1 AACCCCATTTTACAAAACCCACTTTAGACCCAACATGCATTAAACCCAACTAACAATATAAACCC
*
44481281 CTAAACCTATTTACAACCTAAACCCACTAACCCATCAAAAAACCCAAAAACCCAATAGCCCAATT
66 CTAAACCTATTTACAACCTAAACCCACTAACCCATCAAAAAACCCAAAAACCCAATAACCCAATT
44481346 ACACCCTAACCCTAATCAGCCCT
131 ACACCCTAACCCTAATCAGCCCT
44481369 AACCC
1 AACCC
44481374 GAACACCTCA
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 155 1.00
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (153 bp):
AACCCCATTTTACAAAACCCACTTTAGACCCAACATGCATTAAACCCAACTAACAATATAAACCC
CTAAACCTATTTACAACCTAAACCCACTAACCCATCAAAAAACCCAAAAACCCAATAACCCAATT
ACACCCTAACCCTAATCAGCCCT
Found at i:44482957 original size:23 final size:24
Alignment explanation
Indices: 44482911--44482957 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
44482901 ACACATAAGT
* *
44482911 AAATAAAATATAATAATAATACTA
1 AAATAAAATATAATAAAAAAACTA
*
44482935 AAATAAAGTA-AATAAAAAAACTA
1 AAATAAAATATAATAAAAAAACTA
44482958 TATATAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (24 bp):
AAATAAAATATAATAAAAAAACTA
Found at i:44483162 original size:3 final size:3
Alignment explanation
Indices: 44483148--44483251 Score: 51
Period size: 3 Copynumber: 34.7 Consensus size: 3
44483138 TTATACATCA
* * * * *
44483148 AAT AAT ACAT AAT AAT ATT GA- AAT AA- AAT AAT AAGT GAC AAT AGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
44483193 GAA- AAT AAT AAGT AA- AAT AAT AAGT -AT AAT AAT AAGT -AT AAT AAT
1 -AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT
44483238 AA- ATAT AAT AAT AA
1 AAT A-AT AAT AAT AA
44483252 AAACGATAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
2 10 0.13
3 55 0.71
4 12 0.16
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:44483252 original size:12 final size:12
Alignment explanation
Indices: 44483196--44483251 Score: 94
Period size: 12 Copynumber: 4.7 Consensus size: 12
44483186 CAATAGTGAA
*
44483196 AATAATAAGTAA
1 AATAATAAGTAT
44483208 AATAATAAGTAT
1 AATAATAAGTAT
44483220 AATAATAAGTAT
1 AATAATAAGTAT
*
44483232 AATAATAAATAT
1 AATAATAAGTAT
44483244 AATAATAA
1 AATAATAA
44483252 AAACGATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
AATAATAAGTAT
Found at i:44483260 original size:24 final size:24
Alignment explanation
Indices: 44483208--44483262 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
44483198 TAATAAGTAA
* ** *
44483208 AATAATAAGTATAATAATAAGTAT
1 AATAATAAATATAATAATAAAAAC
44483232 AATAATAAATATAATAATAAAAAC
1 AATAATAAATATAATAATAAAAAC
*
44483256 GATAATA
1 AATAATA
44483263 CTATATAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (24 bp):
AATAATAAATATAATAATAAAAAC
Found at i:44483292 original size:23 final size:22
Alignment explanation
Indices: 44483260--44483303 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
44483250 AAAAACGATA
*
44483260 ATACTATATAAAAAGTATATAT
1 ATACTATATAAAAAATATATAT
44483282 ATACATATATAAAAAATATATA
1 ATAC-TATATAAAAAATATATA
44483304 CTAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
ATACTATATAAAAAATATATAT
Found at i:44483300 original size:21 final size:21
Alignment explanation
Indices: 44483235--44483303 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 21
44483225 TAAGTATAAT
*
44483235 AATAAATATA-ATA-ATAAAA
1 AATATATATACATATATAAAA
**
44483254 ACGATA-ATAC-TATATAAAA
1 AATATATATACATATATAAAA
44483273 AGTATATATATACATATATAAAA
1 A--ATATATATACATATATAAAA
44483296 AATATATA
1 AATATATA
44483304 CTAATATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
21 10 0.26
22 4 0.10
23 10 0.26
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
AATATATATACATATATAAAA
Found at i:44483450 original size:9 final size:9
Alignment explanation
Indices: 44483437--44483487 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
44483427 ATATAAAAAA
44483437 AATAATATT
1 AATAATATT
*
44483446 GATAATATT
1 AATAATATT
44483455 AATAATATT
1 AATAATATT
*
44483464 AGA-AATAAT
1 A-ATAATATT
44483473 AATAATATTT
1 AATAATA-TT
44483483 AATAA
1 AATAA
44483488 AGAAACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 1 0.03
9 27 0.77
10 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (9 bp):
AATAATATT
Found at i:44483458 original size:18 final size:18
Alignment explanation
Indices: 44483437--44483481 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
44483427 ATATAAAAAA
*
44483437 AATAATATT-GATAATATT
1 AATAATATTAGA-AATAAT
44483455 AATAATATTAGAAATAAT
1 AATAATATTAGAAATAAT
44483473 AATAATATT
1 AATAATATT
44483482 TAATAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATAATATTAGAAATAAT
Found at i:44485552 original size:16 final size:16
Alignment explanation
Indices: 44485531--44485561 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44485521 TTAAATGATA
44485531 TTAGTACATATATATT
1 TTAGTACATATATATT
44485547 TTAGTACATATATAT
1 TTAGTACATATATAT
44485562 GTATGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTAGTACATATATATT
Found at i:44485788 original size:22 final size:22
Alignment explanation
Indices: 44485740--44485796 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
44485730 TATATTTTCT
* *
44485740 TTTATATATTATGTATATACATT
1 TTTA-ATATTATATATATACATG
* *
44485763 TTTAATATTATATATGTATATG
1 TTTAATATTATATATATACATG
*
44485785 TTT-ATACTATAT
1 TTTAATATTATAT
44485797 TAGTTAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 8 0.28
22 17 0.59
23 4 0.14
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAATATTATATATATACATG
Found at i:44486051 original size:22 final size:21
Alignment explanation
Indices: 44486012--44486086 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 21
44486002 ATTTCTAATG
*
44486012 TATATGTATATATCGTATATGTTT
1 TATATATAT-TAT-GTATAT-TTT
44486036 TATATATATTATGTATATATTT
1 TATATATATTATGTATAT-TTT
44486058 TCA-ATATTATTACT-TATATTTT
1 T-ATATA-TATTA-TGTATATTTT
44486080 TATATAT
1 TATATAT
44486087 TATTCCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.04
22 20 0.44
23 14 0.31
24 9 0.20
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATATATTATGTATATTTT
Found at i:44486064 original size:24 final size:24
Alignment explanation
Indices: 44486037--44486150 Score: 69
Period size: 26 Copynumber: 4.7 Consensus size: 24
44486027 TATATGTTTT
44486037 ATATATATTATGTATATATTTTCA
1 ATATATATTATGTATATATTTTCA
44486061 ATAT-TATTACT-TATAT-TTTT--
1 ATATATATTA-TGTATATATTTTCA
* *
44486081 ATATATTATTCCATGTACATA-TTTCC
1 ATATA-TATT--ATGTATATATTTTCA
* *
44486107 ATATCATCTTATGTATATATTCTTAA
1 ATAT-ATATTATGTATATATT-TTCA
* *
44486133 ACATTATTTTATGTATAT
1 ATA-TATATTATGTATAT
44486151 GTATATTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
20 4 0.06
22 8 0.11
23 11 0.16
24 21 0.30
25 1 0.01
26 23 0.33
27 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTCA
Found at i:44486066 original size:20 final size:21
Alignment explanation
Indices: 44486039--44486090 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44486029 TATGTTTTAT
44486039 ATATATTATGTA-TATATTTTC
1 ATATATTAT-TACTATATTTTC
*
44486060 A-ATATTATTACTTATATTTTT
1 ATATATTATTAC-TATATTTTC
44486081 ATATATTATT
1 ATATATTATT
44486091 CCATGTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 10 0.37
22 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTATTACTATATTTTC
Found at i:44486303 original size:31 final size:29
Alignment explanation
Indices: 44486229--44486304 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 29
44486219 TTAATATTAG
*
44486229 TATATATATT-TTATTATTCTTGTATACA
1 TATATTTATTATTATTATTCTTGTATACA
*
44486257 TATTTTATATATATTATTATT-TTCGTATATCA
1 TATATT-TAT-TATTATTATTCTT-GTATA-CA
44486289 TTATATTTATTATTAT
1 -TATATTTATTATTAT
44486305 ACCTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 4 0.10
29 3 0.08
30 3 0.08
31 19 0.49
32 5 0.13
33 5 0.13
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (29 bp):
TATATTTATTATTATTATTCTTGTATACA
Found at i:44486425 original size:11 final size:11
Alignment explanation
Indices: 44486405--44486433 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44486395 ATATTTATTT
44486405 TATATA-TATG
1 TATATATTATG
44486415 TATATATTATG
1 TATATATTATG
44486426 TATATATT
1 TATATATT
44486434 TTAAAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:44494735 original size:21 final size:22
Alignment explanation
Indices: 44494709--44494755 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
44494699 ACTATTACTC
44494709 ATATTTTAAATT-CAT-TTAAAA
1 ATATTTT-AATTCCATCTTAAAA
*
44494730 ATATTTTAATTCCATCTTAAAT
1 ATATTTTAATTCCATCTTAAAA
44494752 ATAT
1 ATAT
44494756 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTTTAATTCCATCTTAAAA
Found at i:44497190 original size:32 final size:32
Alignment explanation
Indices: 44497153--44497217 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
44497143 GAATAAATTT
*
44497153 ACGGCAACTCAGTAATTTTCTAACTTATGAAC
1 ACGGCAACTCAGTAAATTTCTAACTTATGAAC
44497185 ACGGCAACTCAGTAAATTTCTAACTTATGAAC
1 ACGGCAACTCAGTAAATTTCTAACTTATGAAC
44497217 A
1 A
44497218 TACTTACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (32 bp):
ACGGCAACTCAGTAAATTTCTAACTTATGAAC
Found at i:44498082 original size:18 final size:18
Alignment explanation
Indices: 44498059--44498099 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
44498049 TCAAATGACC
44498059 AGCAATAACTACTATAAT
1 AGCAATAACTACTATAAT
44498077 AGCAATAACTACTATAAT
1 AGCAATAACTACTATAAT
44498095 AGCAA
1 AGCAA
44498100 AAATAGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.24
Consensus pattern (18 bp):
AGCAATAACTACTATAAT
Found at i:44501348 original size:22 final size:20
Alignment explanation
Indices: 44501309--44501355 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
44501299 TGTAAAGTTG
44501309 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
44501328 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
44501351 ATAAT
1 ATAAT
44501356 TATCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:44508863 original size:22 final size:22
Alignment explanation
Indices: 44508837--44508880 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44508827 GAAAATAATC
*
44508837 AAAATTAA-TCAAAATTTATTAT
1 AAAATTAAGT-AAAATTCATTAT
44508859 AAAATTAAGTAAAATTCATTAT
1 AAAATTAAGTAAAATTCATTAT
44508881 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATTAAGTAAAATTCATTAT
Found at i:44508915 original size:27 final size:27
Alignment explanation
Indices: 44508863--44508916 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44508853 TATTATAAAA
* *
44508863 TTAAGTAAAATTCATTATGTTAATAAT
1 TTAAGTAAAAATAATTATGTTAATAAT
*
44508890 TTAAGTACAAAATAATTAT-TTTATAAT
1 TTAAGTA-AAAATAATTATGTTAATAAT
44508917 ATTTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (27 bp):
TTAAGTAAAAATAATTATGTTAATAAT
Found at i:44510271 original size:14 final size:14
Alignment explanation
Indices: 44510252--44510279 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44510242 TATATTGAAA
44510252 AAGGGTGCGTGTGG
1 AAGGGTGCGTGTGG
44510266 AAGGGTGCGTGTGG
1 AAGGGTGCGTGTGG
44510280 TAGCTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.57, T:0.21
Consensus pattern (14 bp):
AAGGGTGCGTGTGG
Found at i:44513100 original size:21 final size:21
Alignment explanation
Indices: 44513050--44513101 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
44513040 TATATATAGA
*
44513050 TATTTTATATATACTTCTTAC
1 TATTTTATGTATACTTCTTAC
* *
44513071 -ATTTT-TGTATATTTCTTTC
1 TATTTTATGTATACTTCTTAC
44513090 TATTTTATGTAT
1 TATTTTATGTAT
44513102 TTTTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.42
20 10 0.38
21 5 0.19
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTTATGTATACTTCTTAC
Found at i:44523653 original size:19 final size:19
Alignment explanation
Indices: 44523616--44523653 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44523606 ACCTGTCAGA
*
44523616 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
44523635 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
44523654 TAAATTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:44523800 original size:72 final size:72
Alignment explanation
Indices: 44523704--44523850 Score: 285
Period size: 72 Copynumber: 2.0 Consensus size: 72
44523694 CAAGTGTTCC
44523704 TAATATCCTAGTTCCCCGGCAACGGCGTCAAAAACTTGATGCGTGATATTCGTAATAGGTTTTAA
1 TAATATCCTAGTTCCCCGGCAACGGCGTCAAAAACTTGATGCGTGATATTCGTAATAGGTTTTAA
*
44523769 AAATTTA
66 AAAATTA
44523776 TAATATCCTAGTTCCCCGGCAACGGCGTCAAAAACTTGATGCGTGATATTCGTAATAGGTTTTAA
1 TAATATCCTAGTTCCCCGGCAACGGCGTCAAAAACTTGATGCGTGATATTCGTAATAGGTTTTAA
44523841 AAAATTA
66 AAAATTA
44523848 TAA
1 TAA
44523851 ATGAATCATT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (72 bp):
TAATATCCTAGTTCCCCGGCAACGGCGTCAAAAACTTGATGCGTGATATTCGTAATAGGTTTTAA
AAAATTA
Found at i:44524955 original size:13 final size:13
Alignment explanation
Indices: 44524937--44524964 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44524927 TTGCCAAAGG
44524937 GACACGCCCGTGT
1 GACACGCCCGTGT
44524950 GACACGCCCGTGT
1 GACACGCCCGTGT
44524963 GA
1 GA
44524965 GAAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:44525459 original size:16 final size:16
Alignment explanation
Indices: 44525438--44525469 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44525428 ACTAGCATCT
44525438 TTACCAACAATATGCC
1 TTACCAACAATATGCC
44525454 TTACCAACAATATGCC
1 TTACCAACAATATGCC
44525470 AATACTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
TTACCAACAATATGCC
Found at i:44539876 original size:27 final size:27
Alignment explanation
Indices: 44539843--44539904 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
44539833 TAGACACCAT
44539843 AATTGTGTCTAATGTTTAGAAAAATTA
1 AATTGTGTCTAATGTTTAGAAAAATTA
*
44539870 AATTGTGTCTAATGTTTAGACAAATTA
1 AATTGTGTCTAATGTTTAGAAAAATTA
44539897 AATTGTGT
1 AATTGTGT
44539905 TTAAATTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (27 bp):
AATTGTGTCTAATGTTTAGAAAAATTA
Found at i:44541383 original size:27 final size:27
Alignment explanation
Indices: 44541353--44541530 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44541343 ATATTGAGTC
* * * *
44541353 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44541380 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44541407 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44541435 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44541462 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44541489 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44541516 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44541531 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44541492 original size:82 final size:81
Alignment explanation
Indices: 44541374--44541529 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44541364 TGCTATATAA
* *
44541374 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44541439 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44541456 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44541520 CACTTAGTGC
65 CACTTAGTGC
44541530 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44549275 original size:27 final size:27
Alignment explanation
Indices: 44549245--44549420 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
44549235 ATTGAGTCCA
* * * *
44549245 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* *
44549272 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
*
44549299 CACACTTAGTGCTACATAGTCAATCTCG
1 CACACTTAGTGCTACATAGTCAA-ATCG
** * *
44549327 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* **
44549354 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAAATCG
*
44549381 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
44549408 CACACTTAGTGCT
1 CACACTTAGTGCT
44549421 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:44549382 original size:82 final size:81
Alignment explanation
Indices: 44549264--44549419 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44549254 TGCTATATAA
* * *
44549264 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
44549329 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44549346 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44549410 CACTTAGTGC
65 CACTTAGTGC
44549420 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44551214 original size:11 final size:11
Alignment explanation
Indices: 44551198--44551224 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44551188 TAGAAATTAG
44551198 TTTGTGAAACT
1 TTTGTGAAACT
44551209 TTTGTGAAACT
1 TTTGTGAAACT
44551220 TTTGT
1 TTTGT
44551225 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:44552757 original size:93 final size:92
Alignment explanation
Indices: 44552625--44552819 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
44552615 TTGATTTTAG
* *
44552625 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
44552689 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
44552717 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
44552782 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
44552810 CAAATTCATA
1 TAAATTCATA
44552820 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:44552877 original size:17 final size:17
Alignment explanation
Indices: 44552852--44552885 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44552842 ATAATTTTAA
*
44552852 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
44552869 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
44552886 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:44552887 original size:15 final size:16
Alignment explanation
Indices: 44552852--44552890 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
44552842 ATAATTTTAA
*
44552852 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
44552869 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
44552884 ATTTAAT
1 ATTTAAT
44552891 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:44552894 original size:17 final size:18
Alignment explanation
Indices: 44552856--44552895 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
44552846 TTTTAAATTT
*
44552856 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
44552874 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
44552890 TATTAA
1 TATTAA
44552896 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:44553010 original size:15 final size:15
Alignment explanation
Indices: 44552975--44553109 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
44552965 TTAAGAATTT
*
44552975 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44552989 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44553003 TATTTAATAATAAT-
1 TATTTAATTATAATA
44553017 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
44553031 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
44553046 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
44553068 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44553082 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44553096 TATTTAATAATAAT
1 TATTTAATTATAAT
44553110 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44553017 original size:120 final size:119
Alignment explanation
Indices: 44552851--44553069 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
44552841 AATAATTTTA
* *
44552851 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
44552914 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
44552970 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
44553034 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
44553070 TTAAATTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.25
120 64 0.70
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:44553098 original size:16 final size:16
Alignment explanation
Indices: 44553077--44553118 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44553067 ATATTAAATT
*
44553077 ATATATTTTAATTATA
1 ATATATTTTAATAATA
44553093 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
44553108 AT-TATGTTTAA
1 ATATAT-TTTAA
44553119 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:44553226 original size:154 final size:156
Alignment explanation
Indices: 44553068--44553365 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
44553058 AGTAAATTCA
*
44553068 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
44553133 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
44553196 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
44553222 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
44553287 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
44553352 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
44553366 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:44553246 original size:18 final size:17
Alignment explanation
Indices: 44553218--44553252 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44553208 ATTATTAAGA
*
44553218 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44553235 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44553253 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44553506 original size:16 final size:16
Alignment explanation
Indices: 44553485--44553523 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44553475 TTGATTTGCT
*
44553485 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
44553501 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
44553517 ATTACAC
1 ATTACAC
44553524 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:44553524 original size:16 final size:16
Alignment explanation
Indices: 44553498--44553554 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
44553488 ACACAGCTTT
* *
44553498 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
44553514 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
44553530 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
44553546 TCCAATACA
1 TCCAATACA
44553555 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:44555273 original size:10 final size:11
Alignment explanation
Indices: 44555246--44555272 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44555236 CTTTATATAT
44555246 TTTTTTAGAAA
1 TTTTTTAGAAA
44555257 TTTTTTAGAAA
1 TTTTTTAGAAA
44555268 TTTTT
1 TTTTT
44555273 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
TTTTTTAGAAA
Found at i:44555273 original size:21 final size:21
Alignment explanation
Indices: 44555247--44555289 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44555237 TTTATATATT
*
44555247 TTTTTAGAAATTTTTTAGAAA
1 TTTTTAGAAATTTTTTAAAAA
* *
44555268 TTTTTATAATTTTTTTAAAAA
1 TTTTTAGAAATTTTTTAAAAA
44555289 T
1 T
44555290 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTTAGAAATTTTTTAAAAA
Found at i:44555307 original size:27 final size:27
Alignment explanation
Indices: 44555275--44555335 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
44555265 AAATTTTTAT
44555275 AATTTTTTTAAA-AATATAAATTTTGG
1 AATTTTTTTAAATAATATAAATTTTGG
* * * *
44555301 AATTTTTATAAATATTTTAAATTTTTG
1 AATTTTTTTAAATAATATAAATTTTGG
44555328 AATTTTTT
1 AATTTTTT
44555336 GTTAAGAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
AATTTTTTTAAATAATATAAATTTTGG
Found at i:44555600 original size:13 final size:12
Alignment explanation
Indices: 44555574--44555607 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
44555564 TGCTCACCCC
44555574 TAATATTTTTTT
1 TAATATTTTTTT
44555586 TAATATTTATTTT
1 TAATATTT-TTTT
44555599 TAATATTTT
1 TAATATTTT
44555608 ACTATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TAATATTTTTTT
Found at i:44556120 original size:3 final size:3
Alignment explanation
Indices: 44556112--44556145 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
44556102 AACATGCCTT
44556112 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA -AA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
44556146 TTAACACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:44565738 original size:42 final size:42
Alignment explanation
Indices: 44565676--44565777 Score: 177
Period size: 42 Copynumber: 2.4 Consensus size: 42
44565666 GGGAATACTT
44565676 CACAGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCCGATC
1 CACAGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCCGATC
* * *
44565718 CATAGCTCATGTGAGTAGCATCGTGTAGCTTACATTCTGATC
1 CACAGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCCGATC
44565760 CACAGCTCGTGTGAGTAG
1 CACAGCTCGTGTGAGTAG
44565778 ACCCATTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (42 bp):
CACAGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCCGATC
Found at i:44567502 original size:28 final size:28
Alignment explanation
Indices: 44567470--44567528 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
44567460 GCCTAATAGT
* ** *
44567470 TGCTTTCAAATTGTGCTCTAATCGCCAA
1 TGCTTGCAAATTGCACTCCAATCGCCAA
*
44567498 TGCTTGCAAATTGCACTCCAATTGCCAA
1 TGCTTGCAAATTGCACTCCAATCGCCAA
44567526 TGC
1 TGC
44567529 CCACAACCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (28 bp):
TGCTTGCAAATTGCACTCCAATCGCCAA
Found at i:44569011 original size:18 final size:18
Alignment explanation
Indices: 44568990--44569027 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
44568980 GGTTGTAAAC
44568990 TAGTTTAAGGTGATAGAA
1 TAGTTTAAGGTGATAGAA
44569008 TAGTTTAAGGTGATAGAA
1 TAGTTTAAGGTGATAGAA
44569026 TA
1 TA
44569028 AAGTGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (18 bp):
TAGTTTAAGGTGATAGAA
Found at i:44572666 original size:63 final size:67
Alignment explanation
Indices: 44572598--44572736 Score: 151
Period size: 68 Copynumber: 2.1 Consensus size: 67
44572588 AAATAATATT
* * * *
44572598 ATTTTAAT-A-GAT-TTAGTATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATT
1 ATTTTAATCATGATCTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTACTATATTAATT
44572659 TA
66 TA
* * * *
44572661 ATTTTAAAATCATTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTACTATATTAA
1 ATTTT--AATCATGATCTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTACTATATTAA
44572726 TTTA
64 TTTA
*
44572730 ATATTAA
1 ATTTTAA
44572737 AGTGATTAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
63 5 0.08
65 3 0.05
66 1 0.02
67 4 0.07
68 29 0.48
69 19 0.31
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (67 bp):
ATTTTAATCATGATCTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTACTATATTAATT
TA
Found at i:44572683 original size:39 final size:38
Alignment explanation
Indices: 44572595--44572683 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 38
44572585 TAAAAATAAT
* *
44572595 ATTATTTTAATAGATTTAGTATTAAATTAAATTTAATAC
1 ATTATCTTAATAGATTTA-TATTAAATTAAATTTAAAAC
* *
44572634 -TTATCTTAATAGTATTT-TATTAATTTAATTTTAAAATC
1 ATTATCTTAATAG-ATTTATATTAAATTAAATTTAAAA-C
44572672 ATTATCTTAATA
1 ATTATCTTAATA
44572684 TTAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
37 16 0.37
38 12 0.28
39 15 0.35
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.52
Consensus pattern (38 bp):
ATTATCTTAATAGATTTATATTAAATTAAATTTAAAAC
Found at i:44573248 original size:21 final size:23
Alignment explanation
Indices: 44573223--44573270 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
44573213 TCGCATTTTT
*
44573223 AAAATTA-TAAAAATCAAA-TAA
1 AAAATTACTAAAAATAAAATTAA
*
44573244 AAAATTACTAAATATAAAATTAA
1 AAAATTACTAAAAATAAAATTAA
44573267 AAAA
1 AAAA
44573271 ACAAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAATTACTAAAAATAAAATTAA
Found at i:44573321 original size:15 final size:15
Alignment explanation
Indices: 44573301--44573336 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
44573291 GAAAGAAAAA
44573301 TTGAGAACAAAATAG
1 TTGAGAACAAAATAG
44573316 TTGAGAACAAAATAG
1 TTGAGAACAAAATAG
44573331 TTGAGA
1 TTGAGA
44573337 GAATAGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (15 bp):
TTGAGAACAAAATAG
Found at i:44574281 original size:29 final size:29
Alignment explanation
Indices: 44574248--44574307 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
44574238 ATATCATTGA
44574248 TAAAATTACCAAACGATATAAAAGCGTAT
1 TAAAATTACCAAACGATATAAAAGCGTAT
* * * *
44574277 TAAAATTAGCGAATGATATAAAATCGTAT
1 TAAAATTACCAAACGATATAAAAGCGTAT
44574306 TA
1 TA
44574308 GTTTTACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (29 bp):
TAAAATTACCAAACGATATAAAAGCGTAT
Found at i:44574379 original size:24 final size:24
Alignment explanation
Indices: 44574333--44574379 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44574323 GATTATTTTC
*
44574333 TATTTATTTATTTGTTTTTTACAA
1 TATTTATTTATTTGTTTTCTACAA
44574357 TATTTATTTATTT-TTATTCTACA
1 TATTTATTTATTTGTT-TTCTACA
44574380 TCGTATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTATTTATTTGTTTTCTACAA
Found at i:44591853 original size:25 final size:25
Alignment explanation
Indices: 44591825--44591891 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
44591815 AGACTCACCA
*
44591825 TAGCTCGCATAAGCTTACCGATATT
1 TAGCTCGGATAAGCTTACCGATATT
*
44591850 TAGCTCGGA-AGAGCTTACTGATATT
1 TAGCTCGGATA-AGCTTACCGATATT
* *
44591875 CAGCTCGGATGAGCTTA
1 TAGCTCGGATAAGCTTA
44591892 TCGTTTACCG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
TAGCTCGGATAAGCTTACCGATATT
Found at i:44592554 original size:45 final size:45
Alignment explanation
Indices: 44592505--44592627 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
44592495 ACCGGAAATA
* * *
44592505 AGTAAGACCATAATTGAAAGACGTTATGGCATCACGATTCTAACG
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAACG
* * * * *
44592550 AGTAAGACCTTAGCTGAAAGATGCTATGGCATCATGAATCTGACG
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAACG
* * * *
44592595 AATAAGACCATTGTTGAAAGACACTATGACATC
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATC
44592628 CTTTAACCAA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAACG
Found at i:44593595 original size:13 final size:13
Alignment explanation
Indices: 44593577--44593602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44593567 CCATGCGCAC
44593577 GGGCGTGTAGTTT
1 GGGCGTGTAGTTT
44593590 GGGCGTGTAGTTT
1 GGGCGTGTAGTTT
44593603 AGCCGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.46, T:0.38
Consensus pattern (13 bp):
GGGCGTGTAGTTT
Found at i:44598973 original size:14 final size:14
Alignment explanation
Indices: 44598954--44598985 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
44598944 ATTAAGGTAG
44598954 AATTTTCTATTTAT
1 AATTTTCTATTTAT
44598968 AATTTTCTATTTAT
1 AATTTTCTATTTAT
44598982 AATT
1 AATT
44598986 GTTTCTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTTCTATTTAT
Found at i:44603564 original size:3 final size:3
Alignment explanation
Indices: 44603556--44603590 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44603546 CAAGGATCCT
44603556 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
44603591 TCTCACAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44609004 original size:66 final size:66
Alignment explanation
Indices: 44608870--44609005 Score: 168
Period size: 66 Copynumber: 2.1 Consensus size: 66
44608860 TGATTTATTA
* * * * *
44608870 GAGAGTGTTCGCTTTATGCTTCACTTTTTGGGATATGTTCGACTTTATGAGTCAATTGATGTGTT
1 GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTCAATTGATGTGAT
44608935 G
66 G
* * *
44608936 GAGAGTGTTAGTTTTATGCTTCAC-TTATAGGACATGTTTGACTTTATGAGTCTATTTGGA-GTG
1 GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTC-AATT-GATGTG
44608999 ATG
64 ATG
44609002 GAGA
1 GAGA
44609006 TCCATGTATC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 24 0.40
66 34 0.57
67 2 0.03
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.42
Consensus pattern (66 bp):
GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTCAATTGATGTGAT
G
Found at i:44631297 original size:15 final size:15
Alignment explanation
Indices: 44631279--44631307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44631269 CCTGTAGAAA
44631279 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
44631294 TTAAATTAAACTAA
1 TTAAATTAAACTAA
44631308 TGGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:44631648 original size:20 final size:20
Alignment explanation
Indices: 44631623--44631688 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
44631613 TGTAAGAGTA
44631623 AAAATGCAATGACAATTACG
1 AAAATGCAATGACAATTACG
* **
44631643 AAAATGTTTATATG--AA-TAAT
1 AAAATG--CA-ATGACAATTACG
44631663 AAAATGCAATGACAATTACG
1 AAAATGCAATGACAATTACG
44631683 AAAATG
1 AAAATG
44631689 TTTATATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 3 0.09
18 1 0.03
19 2 0.06
20 22 0.65
21 2 0.06
22 1 0.03
23 3 0.09
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (20 bp):
AAAATGCAATGACAATTACG
Found at i:44631677 original size:40 final size:40
Alignment explanation
Indices: 44631623--44631703 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
44631613 TGTAAGAGTA
44631623 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
1 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
44631663 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
1 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
44631703 A
1 A
44631704 TGTACTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (40 bp):
AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
Found at i:44635900 original size:46 final size:49
Alignment explanation
Indices: 44635621--44636029 Score: 280
Period size: 48 Copynumber: 8.7 Consensus size: 49
44635611 GGGTATAATA
* * * *
44635621 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGT--
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCAAGTAG
* * *
44635669 -CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATCGAG--G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-C--TCTACATCAAGTAG
* * * *
44635717 CC-AGCGCCAAGTCCTAGACATGGTCTTACACTAGCTCTCACAT-ATCCGT-G
1 CCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCA--AGTAG
* * * *
44635767 CCGATGTCATGTCCCAGACATGGTCTTACACTAACACCT-CTAT-ACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTAC-ATCAAGTAG
*
44635815 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCAAGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTAG
**
44635861 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTA-G
* * * **
44635907 CCGATG-TATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCGATA-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAG-TAG
*
44635953 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAA-GTAG
*
44636001 CTGATG-CATGT-CCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
44636030 GGCACAAAAA
Statistics
Matches: 297, Mismatches: 36, Indels: 59
0.76 0.09 0.15
Matches are distributed among these distances:
44 12 0.04
45 31 0.10
46 67 0.23
47 51 0.17
48 69 0.23
49 31 0.10
50 33 0.11
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTAG
Found at i:44636012 original size:94 final size:96
Alignment explanation
Indices: 44635621--44636029 Score: 343
Period size: 93 Copynumber: 4.3 Consensus size: 96
44635611 GGGTATAATA
* * * **
44635621 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGT--CGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTCGTACCGATGCCATGTCCCA
* *
44635684 GACATGGTCTTACACT-GACTATCAAAATCGAGG
64 GACATGGTCTTACACTAG-CTCTCATAATCGAGG
* * * * * *
44635717 CC-AGCGCCAAGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGTCATGTCC
1 CCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CGTACCGATGCCATGTCC
* * *
44635781 CAGACATGGTCTTACACTAACACCTC-T-ATACG-TG
62 CAGACATGGTCTTACACTAGC-TCTCATAAT-CGAGG
* * **
44635815 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCAAGTAGCCGATG-CATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTA-CCGATGCCATGTCCCAG
*
44635877 ACAT-GTCTTACACTAGCT-TACAT-CTCGAGG
65 ACATGGTCTTACACTAGCTCT-CATAATCGAGG
* * *
44635907 CCGATG-TATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCGATACCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCG-TACCGATGCCATGTCCCAG
*
44635970 ACATGGTCTTACACTAGCTCTCATAAT-GTGG
65 ACATGGTCTTACACTAGCTCTCATAATCGAGG
*
44636001 CTGATG-CATGT-CCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
44636030 GGCACAAAAA
Statistics
Matches: 252, Mismatches: 41, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
90 11 0.04
91 16 0.06
92 32 0.13
93 49 0.19
94 38 0.15
95 4 0.02
96 33 0.13
97 3 0.01
98 30 0.12
99 34 0.13
100 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCATAATCGAGG
Found at i:44639577 original size:21 final size:21
Alignment explanation
Indices: 44639553--44639601 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44639543 ATGGTGAATC
44639553 CAGCTTCTAAGATGGATCAAT
1 CAGCTTCTAAGATGGATCAAT
* *
44639574 CAGCTTTTGAGATGGATCAAT
1 CAGCTTCTAAGATGGATCAAT
*
44639595 CGGCTTC
1 CAGCTTC
44639602 CTTGGAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (21 bp):
CAGCTTCTAAGATGGATCAAT
Found at i:44642661 original size:35 final size:35
Alignment explanation
Indices: 44642586--44642661 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
44642576 CTTAGCTGGC
* *
44642586 GGATTAATCCGCCTAGGTGAAATTGGACCATGCCG
1 GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
* * **
44642621 AGATCAATCCTCCTAGGCGAAATTGGACTGTGCCG
1 GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
44642656 GGATCA
1 GGATCA
44642662 TTGTAGTTCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (35 bp):
GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
Found at i:44648480 original size:21 final size:21
Alignment explanation
Indices: 44648454--44648494 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44648444 TTATGCAATG
44648454 TTTTAAAAATACTAAAATACA
1 TTTTAAAAATACTAAAATACA
*
44648475 TTTTAAAAATGCTAAAATAC
1 TTTTAAAAATACTAAAATAC
44648495 TATCCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
TTTTAAAAATACTAAAATACA
Found at i:44652908 original size:57 final size:56
Alignment explanation
Indices: 44652795--44652908 Score: 124
Period size: 57 Copynumber: 2.0 Consensus size: 56
44652785 TACATTTTGC
* * * *
44652795 AATAGGATTACCAGTCCAAGCTAAATCCTATCCATAGCATATGCTCTAGGGAGCTT
1 AATAGGATTACCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAGGGAGCTT
** *
44652851 AATATGGATTACCCA-TCCAAGCTAAATCCAATTTATAACCTAAGCTCAAGAGG-GCTT
1 AATA-GGATTA-CCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAG-GGAGCTT
44652908 A
1 A
44652909 CATTAGAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.08
57 39 0.81
58 5 0.10
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (56 bp):
AATAGGATTACCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAGGGAGCTT
Found at i:44656710 original size:17 final size:17
Alignment explanation
Indices: 44656667--44656710 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
44656657 CTCGTTGGAA
* *
44656667 CAACCCTATCGCCAGAG
1 CAACCCTATTGCCAAAG
44656684 CAACCCTATTGCCAAAG
1 CAACCCTATTGCCAAAG
44656701 CAACCCTATT
1 CAACCCTATT
44656711 ATTGGAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (17 bp):
CAACCCTATTGCCAAAG
Found at i:44658986 original size:42 final size:43
Alignment explanation
Indices: 44658939--44659024 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
44658929 AGGGTAAATC
*
44658939 CAACAACCCAAGTTTATCTTCTCC-TTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
*
44658981 CAACAACCCATGATTATCTTCTCCTTTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCC-TTTTTTTAAATTCTTTTTT
44659025 TTAAGATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 22 0.55
44 18 0.45
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.51
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
Found at i:44663575 original size:56 final size:56
Alignment explanation
Indices: 44663489--44663608 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44663479 ACAAGGGATG
44663489 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
44663545 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
44663601 ATGGGCAA
1 ATGGGCAA
44663609 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:44664872 original size:79 final size:81
Alignment explanation
Indices: 44664736--44664918 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
44664726 TCGAATGATG
* *
44664736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
44664800 TGTGCGGGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
44664815 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
44664877 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
44664895 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44664919 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:44664934 original size:40 final size:40
Alignment explanation
Indices: 44664737--44664920 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
44664727 CGAATGATGT
* * * *
44664737 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44664777 CCGGACTAAGAT-CCGAAGGCATTTGTGCGGGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
44664817 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44664855 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44664896 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44664921 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44664942 original size:79 final size:79
Alignment explanation
Indices: 44664789--44664953 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
44664779 GGACTAAGAT
* * **
44664789 CCGAAGGCATTTGTGCGGGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
44664854 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
44664868 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
44664931 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44664947 CCGAAGG
1 CCGAAGG
44664954 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:44670364 original size:13 final size:13
Alignment explanation
Indices: 44670346--44670372 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44670336 AATGGTGCCA
44670346 TCTTAATGCTCAT
1 TCTTAATGCTCAT
44670359 TCTTAATGCTCAT
1 TCTTAATGCTCAT
44670372 T
1 T
44670373 TGATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TCTTAATGCTCAT
Found at i:44672035 original size:14 final size:14
Alignment explanation
Indices: 44672016--44672059 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
44672006 CCGTTAGATT
44672016 AAATTCATTAAAAA
1 AAATTCATTAAAAA
* **
44672030 AAATTCATTAGATT
1 AAATTCATTAAAAA
44672044 AAATTCATTAAAAA
1 AAATTCATTAAAAA
44672058 AA
1 AA
44672060 GAATAACAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (14 bp):
AAATTCATTAAAAA
Found at i:44672041 original size:28 final size:30
Alignment explanation
Indices: 44671972--44672059 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 30
44671962 AAGAATAACA
44671972 ATCCATTAGATTAAATTCATTAAAAAATAAT
1 ATCCATTAGATTAAATTCATTAAAAAA-AAT
*
44672003 AATCCGTTAGATTAAATTCATTAAAAAAAAT
1 -ATCCATTAGATTAAATTCATTAAAAAAAAT
44672034 -T-CATTAGATTAAATTCATTAAAAAAA
1 ATCCATTAGATTAAATTCATTAAAAAAA
44672060 GAATAACAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 24 0.44
29 1 0.02
31 3 0.06
32 26 0.48
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (30 bp):
ATCCATTAGATTAAATTCATTAAAAAAAAT
Found at i:44675093 original size:24 final size:24
Alignment explanation
Indices: 44675061--44675106 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44675051 GCCACTGTAT
*
44675061 CTCAAATTTTTGCGGCGTTTTTAG
1 CTCAAATTTTTGCGGCATTTTTAG
*
44675085 CTCAAATTTTTGTGGCATTTTT
1 CTCAAATTTTTGCGGCATTTTT
44675107 CCCCAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (24 bp):
CTCAAATTTTTGCGGCATTTTTAG
Found at i:44675113 original size:23 final size:24
Alignment explanation
Indices: 44675063--44675113 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
44675053 CACTGTATCT
* * *
44675063 CAAATTTTTGCGGCGTTTTTAGCT
1 CAAATTTTTGCGGCATTTTTACCC
*
44675087 CAAATTTTTGTGGCATTTTT-CCC
1 CAAATTTTTGCGGCATTTTTACCC
44675110 CAAA
1 CAAA
44675114 AACGCCACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (24 bp):
CAAATTTTTGCGGCATTTTTACCC
Found at i:44675351 original size:8 final size:8
Alignment explanation
Indices: 44675286--44675350 Score: 82
Period size: 8 Copynumber: 8.5 Consensus size: 8
44675276 AATATTAAAA
44675286 TTTTAAGT
1 TTTTAAGT
44675294 TTTTAAGT
1 TTTTAAGT
44675302 TTTTAAGT
1 TTTTAAGT
44675310 TTTTAA-T
1 TTTTAAGT
*
44675317 TTTTAATT
1 TTTTAAGT
*
44675325 TTTTTA-T
1 TTTTAAGT
*
44675332 TTTTAAAT
1 TTTTAAGT
44675340 TTTTAA-T
1 TTTTAAGT
44675347 TTTT
1 TTTT
44675351 TTGAAGATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
7 18 0.34
8 35 0.66
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (8 bp):
TTTTAAGT
Found at i:44675351 original size:16 final size:15
Alignment explanation
Indices: 44675286--44675350 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
44675276 AATATTAAAA
44675286 TTTTAAGTTTTTAAGT
1 TTTTAAGTTTTTAA-T
44675302 TTTTAAGTTTTTAAT
1 TTTTAAGTTTTTAAT
* *
44675317 TTTTAATTTTTTTAT
1 TTTTAAGTTTTTAAT
*
44675332 TTTTAAATTTTTAAT
1 TTTTAAGTTTTTAAT
44675347 TTTT
1 TTTT
44675351 TTGAAGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 31 0.69
16 14 0.31
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTAAGTTTTTAAT
Found at i:44675352 original size:23 final size:24
Alignment explanation
Indices: 44675286--44675352 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
44675276 AATATTAAAA
* * *
44675286 TTTTAAGTTTTTAAGTTTTTAAGT
1 TTTTAAATTTTTAATTTTTTTAGT
44675310 TTTT-AATTTTTAATTTTTTTA-T
1 TTTTAAATTTTTAATTTTTTTAGT
44675332 TTTTAAATTTTTAATTTTTTT
1 TTTTAAATTTTTAATTTTTTT
44675353 GAAGATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.13
23 30 0.77
24 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTAAATTTTTAATTTTTTTAGT
Done.